Wall clock time and date at job start Tue Mar 31 2020 16:33:50 AMSOL-version 7.1 by G. D. Hawkins, D. J. Giesen, G. C. Lynch, C. C. Chambers, I. Rossi, J. W. Storer, J. Li, J. D. Thompson, P. Winget, B. J. Lynch, D. Rinaldi, D. A. Liotard, C. J. Cramer, and D. G. Truhlar Copyright 2004 by Regents of the University of Minnesota. All rights reserved. Notice: recipients of this code are asked to comply with the user agreement in Section 1 of the documentation file. ******************************************************************************* * 1SCF - SCF CALCULATION WITHOUT GEOMETRY OPTIMIZATION * - USE EF ROUTINE FOR MINIMUM SEARCH (DEFAULT) * GEO-OK - OVERRIDE INTERATOMIC DISTANCE CHECK * TLIMIT= - A TIME OF 15. SECONDS REQUESTED * CHARGE - CHARGE ON SYSTEM= -1 * AM1 - THE AM1 HAMILTONIAN TO BE USED * SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED * - CHARGE MODEL 2 WILL BE USED (CM2A) * - THE SOLVENT IS WATER ******************************************************************************* Atom NO. Chemical Bond length Bond angle Dihedral angle number (k) symbol (angstroms) (degrees) (degrees) (I) NA:I NB:NA:I NC:NB:NA:I NA NB NC 1 1 N 2 2 C 1.31623 * 1 3 3 Si 1.86801 * 119.99997 * 2 1 4 4 H 1.48496 * 109.47323 * 270.00401 * 3 2 1 5 5 H 1.48501 * 109.46818 * 30.00500 * 3 2 1 6 6 H 1.48500 * 109.46759 * 150.00237 * 3 2 1 7 7 C 1.38816 * 119.99748 * 180.02562 * 2 1 3 8 8 H 1.07996 * 119.99452 * 197.35493 * 7 2 1 9 9 N 1.36930 * 120.00154 * 17.35845 * 7 2 1 10 10 C 1.46938 * 120.60307 * 207.65921 * 9 7 2 11 11 C 1.53192 * 108.77026 * 233.57630 * 10 9 7 12 12 C 1.53046 * 109.33981 * 305.41317 * 11 10 9 13 13 N 1.46489 * 109.45975 * 181.37195 * 12 11 10 14 14 S 1.65605 * 120.00264 * 145.00118 * 13 12 11 15 15 O 1.42096 * 104.27787 * 181.07146 * 14 13 12 16 16 O 1.42108 * 104.27219 * 308.92782 * 14 13 12 17 17 C 1.81395 * 104.44809 * 64.99627 * 14 13 12 18 18 C 1.53003 * 109.47091 * 180.02562 * 17 14 13 19 19 C 1.52999 * 109.47066 * 180.02562 * 18 17 14 20 20 H 1.09002 * 110.80632 * 305.70146 * 19 18 17 21 21 C 1.54813 * 110.90512 * 182.07805 * 19 18 17 22 22 C 1.54105 * 104.18240 * 220.92231 * 21 19 18 23 23 O 1.43740 * 107.29679 * 357.96902 * 22 21 19 24 24 C 1.44417 * 107.00142 * 26.48957 * 23 22 21 25 25 C 1.53037 * 109.53856 * 61.34839 * 12 11 10 26 26 C 1.46921 * 120.63396 * 27.68046 * 9 7 2 27 27 H 0.96998 * 119.99441 * 359.97438 * 1 2 3 28 28 H 1.08999 * 109.56067 * 113.80682 * 10 9 7 29 29 H 1.08997 * 109.61769 * 353.37961 * 10 9 7 30 30 H 1.09000 * 109.49508 * 185.44834 * 11 10 9 31 31 H 1.08999 * 109.49895 * 65.38212 * 11 10 9 32 32 H 1.09004 * 109.45761 * 301.33100 * 12 11 10 33 33 H 0.97003 * 120.00390 * 325.00411 * 13 12 11 34 34 H 1.09003 * 109.47485 * 300.00502 * 17 14 13 35 35 H 1.09003 * 109.46847 * 60.00754 * 17 14 13 36 36 H 1.08997 * 109.46965 * 300.00681 * 18 17 14 37 37 H 1.09003 * 109.46659 * 60.00639 * 18 17 14 38 38 H 1.09001 * 110.48583 * 339.59224 * 21 19 18 39 39 H 1.08993 * 110.49012 * 102.25072 * 21 19 18 40 40 H 1.09003 * 109.87582 * 117.39886 * 22 21 19 41 41 H 1.09003 * 109.87612 * 238.54406 * 22 21 19 42 42 H 1.08999 * 110.65397 * 201.48219 * 24 23 22 43 43 H 1.08993 * 110.60366 * 78.46825 * 24 23 22 44 44 H 1.09001 * 109.49590 * 58.58722 * 25 12 11 45 45 H 1.08997 * 109.50136 * 178.65250 * 25 12 11 46 46 H 1.09001 * 109.58442 * 6.60368 * 26 9 7 47 47 H 1.09003 * 109.70657 * 246.24738 * 26 9 7 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 7 0.0000 0.0000 0.0000 2 6 1.3162 0.0000 0.0000 3 14 2.2502 1.6177 0.0000 4 1 2.4977 2.0465 -1.4000 5 1 1.4477 2.6526 0.7002 6 1 3.5478 1.4401 0.7000 7 6 2.0103 -1.2022 -0.0005 8 1 3.0533 -1.2236 0.2785 9 7 1.3724 -2.3609 -0.3548 10 6 1.8202 -3.6546 0.1788 11 6 2.0747 -4.6093 -0.9920 12 6 0.8190 -4.6887 -1.8633 13 7 1.0482 -5.6261 -2.9654 14 16 -0.1932 -6.5713 -3.5204 15 8 0.3953 -7.3533 -4.5506 16 8 -0.7208 -7.1796 -2.3495 17 6 -1.3831 -5.3925 -4.2168 18 6 -2.5908 -6.1528 -4.7685 19 6 -3.5942 -5.1586 -5.3565 20 1 -3.8614 -4.3983 -4.6224 21 6 -4.8550 -5.8896 -5.8785 22 6 -5.1842 -5.1752 -7.2037 23 8 -4.2256 -4.1168 -7.3682 24 6 -3.0365 -4.5084 -6.6482 25 6 0.5009 -3.3032 -2.4302 26 6 0.2279 -2.3339 -1.2758 27 1 -0.4849 0.8401 0.0004 28 1 1.0481 -4.0690 0.8270 29 1 2.7412 -3.5177 0.7454 30 1 2.3139 -5.6008 -0.6075 31 1 2.9086 -4.2393 -1.5885 32 1 -0.0201 -5.0357 -1.2603 33 1 1.9272 -5.6933 -3.3702 34 1 -1.7120 -4.7050 -3.4375 35 1 -0.9090 -4.8301 -5.0212 36 1 -2.2622 -6.8405 -5.5477 37 1 -3.0648 -6.7149 -3.9639 38 1 -4.6389 -6.9430 -6.0565 39 1 -5.6783 -5.7820 -5.1724 40 1 -5.1062 -5.8782 -8.0331 41 1 -6.1911 -4.7599 -7.1607 42 1 -2.4282 -3.6366 -6.4074 43 1 -2.4603 -5.2324 -7.2243 44 1 1.3495 -2.9450 -3.0130 45 1 -0.3795 -3.3651 -3.0698 46 1 0.0985 -1.3254 -1.6683 47 1 -0.6757 -2.6394 -0.7482 RHF calculation, no. of doubly occupied orbitals= 61 REFERENCES FOR PARAMETERS IN GAS-PHASE HAMILTONIAN: H: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985) C: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985) N: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985) O: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985) Si: (AM1): M.J.S.DEWAR, C. JIE, ORGANOMETALLICS, 6, 1486-1490 (1987). S: (AM1): M.J.S. DEWAR, Y.-C. YUAN, INORGANIC CHEM., 29, 589 (1990) REFERENCE FOR CHARGE MODEL 2: J. Li, J. Xing, C. J. Cramer, and D. G. Truhlar, J. Chem. Phys. 111 (1999) 885. REFERENCE FOR THE PARAMETERIZATION OF THE SM5.42R SOLVATION MODEL: J. Li, T. Zhu, G. D. Hawkins, P. Winget, D. A. Liotard, C. J. Cramer, and D. G. Truhlar, Theor. Chem. Acc. 103 (1999) 9-63 P. Winget, J. D. Thompson C. J. Cramer,and D. G. Truhlar, J. Phys. Chem. B. submitted. CHARGE=-1 AM1 1SCF TLIMIT=15 GEO-OK SM5.42R & SOLVNT=WATER ZINC001324928245.mol2 47 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Tue Mar 31 2020 16:33:50 Heat of formation + Delta-G solvation = -135.241750 kcal Electronic energy + Delta-G solvation = -27669.318592 eV Core-core repulsion = 23785.181676 eV Total energy + Delta-G solvation = -3884.136916 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 332.160 amu Computer time = 0.90 seconds Orbital eigenvalues (eV) -40.43460 -39.56347 -38.14647 -37.04796 -36.20844 -35.86971 -33.67504 -31.97439 -31.55052 -30.77057 -29.46728 -26.70319 -25.38594 -23.81261 -23.56230 -23.13159 -21.47325 -21.09793 -20.21096 -18.93094 -18.43852 -17.75595 -17.48990 -17.05178 -16.82704 -16.62427 -16.34795 -15.97273 -15.50492 -15.31993 -15.16852 -14.78537 -14.61296 -14.35956 -14.30483 -14.06313 -13.61675 -13.46489 -13.24219 -13.13080 -13.04516 -12.99522 -12.83384 -12.59862 -12.55507 -12.48280 -12.29423 -12.15320 -12.00978 -11.84249 -11.77937 -11.66134 -11.51780 -11.33103 -11.19304 -10.64335 -10.57730 -10.22182 -8.67087 -7.85743 -5.29575 -0.72111 1.48848 1.50760 1.58711 1.72914 2.53358 2.74465 2.99891 3.23301 3.30106 3.36994 3.66676 3.69262 3.82899 3.87883 3.92249 3.98513 4.09198 4.20879 4.29463 4.34310 4.38365 4.43151 4.54023 4.57977 4.68449 4.72951 4.82959 4.84570 4.88178 4.89503 4.92358 5.01781 5.10489 5.14451 5.19153 5.25900 5.31959 5.40999 5.53379 5.68125 5.79655 5.92017 6.14696 6.42006 7.18129 7.89045 8.39440 9.20636 Molecular weight = 332.16amu Principal moments of inertia in cm(-1) A = 0.011968 B = 0.003351 C = 0.002762 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2338.929740 B = 8354.607656 C =10135.826469 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.933 5.933 2 C -0.048 4.048 3 Si 0.963 3.037 4 H -0.285 1.285 5 H -0.298 1.298 6 H -0.271 1.271 7 C -0.260 4.260 8 H 0.066 0.934 9 N -0.610 5.610 10 C 0.139 3.861 11 C -0.125 4.125 12 C 0.159 3.841 13 N -1.107 6.107 14 S 2.620 3.380 15 O -0.989 6.989 16 O -0.993 6.993 17 C -0.622 4.622 18 C -0.106 4.106 19 C -0.113 4.113 20 H 0.090 0.910 21 C -0.154 4.154 22 C 0.039 3.961 23 O -0.407 6.407 24 C 0.039 3.961 25 C -0.149 4.149 26 C 0.173 3.827 27 H 0.249 0.751 28 H 0.017 0.983 29 H 0.058 0.942 30 H 0.080 0.920 31 H 0.070 0.930 32 H 0.082 0.918 33 H 0.423 0.577 34 H 0.148 0.852 35 H 0.157 0.843 36 H 0.092 0.908 37 H 0.090 0.910 38 H 0.092 0.908 39 H 0.089 0.911 40 H 0.068 0.932 41 H 0.089 0.911 42 H 0.097 0.903 43 H 0.073 0.927 44 H 0.065 0.935 45 H 0.082 0.918 46 H 0.059 0.941 47 H 0.002 0.998 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -6.259 -13.362 -13.197 19.796 Note: The Mulliken population analysis charges presented below were not used in the solvation calculation but are provided for completeness. The chosen solvation model uses CM2 partial charges for calculating solvation energies. Net atomic charges, atomic populations, and dipole contributions using Mulliken population analysis Atom NO. Type Charge No. of electrons 1 N -0.579 5.579 2 C -0.244 4.244 3 Si 0.792 3.208 4 H -0.212 1.212 5 H -0.224 1.224 6 H -0.196 1.196 7 C -0.391 4.391 8 H 0.084 0.916 9 N -0.334 5.334 10 C 0.013 3.987 11 C -0.166 4.166 12 C 0.052 3.948 13 N -0.866 5.866 14 S 2.716 3.284 15 O -0.979 6.979 16 O -0.983 6.983 17 C -0.754 4.754 18 C -0.145 4.145 19 C -0.133 4.133 20 H 0.108 0.892 21 C -0.192 4.192 22 C -0.038 4.038 23 O -0.327 6.327 24 C -0.037 4.037 25 C -0.190 4.190 26 C 0.046 3.954 27 H 0.059 0.941 28 H 0.035 0.965 29 H 0.077 0.923 30 H 0.099 0.901 31 H 0.089 0.911 32 H 0.100 0.900 33 H 0.259 0.741 34 H 0.166 0.834 35 H 0.175 0.825 36 H 0.111 0.889 37 H 0.109 0.891 38 H 0.111 0.889 39 H 0.107 0.893 40 H 0.086 0.914 41 H 0.108 0.892 42 H 0.115 0.885 43 H 0.091 0.909 44 H 0.084 0.916 45 H 0.101 0.899 46 H 0.077 0.923 47 H 0.020 0.980 Dipole moment (debyes) X Y Z Total from point charges -6.564 -14.015 -13.141 20.303 hybrid contribution 0.482 1.671 0.160 1.746 sum -6.082 -12.344 -12.981 18.918 Atomic orbital electron populations 1.70167 1.06483 1.25757 1.55469 1.25717 0.95999 1.01234 1.01415 0.85330 0.78096 0.79885 0.77501 1.21220 1.22434 1.19575 1.19504 0.92987 0.86065 1.40509 0.91610 1.44354 1.35959 1.02103 1.50996 1.21056 0.97758 0.85795 0.94067 1.22144 0.97084 0.99848 0.97494 1.20669 0.99280 0.88111 0.86789 1.55437 1.26392 1.57674 1.47056 1.04467 0.75105 0.75189 0.73610 1.93552 1.76013 1.68254 1.60087 1.93562 1.80971 1.75014 1.48779 1.30691 1.13434 1.16873 1.14430 1.21400 0.93253 0.97720 1.02114 1.22669 0.94872 0.97869 0.97856 0.89201 1.23074 0.97947 1.01006 0.97131 1.23337 0.93532 0.89657 0.97236 1.88860 1.25899 1.43521 1.74389 1.23869 0.88170 1.00593 0.91048 1.22678 1.02235 0.95112 0.98973 1.20631 0.87889 0.97973 0.88862 0.94146 0.96530 0.92296 0.90127 0.91148 0.90018 0.74132 0.83441 0.82471 0.88940 0.89105 0.88927 0.89279 0.91418 0.89238 0.88471 0.90853 0.91585 0.89941 0.92291 0.98011 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 18. Note: The number of geometries may not correspond to the number of cycles due to rejected geometry changes. In the following table subtotal= G_P + SS G_CDS. Atom Chem. CM2 G_P Area Sigma k SS G_CDS Subtotal M number symbol chg. (kcal) (Ang**2) cal/(Ang**2) (kcal) (kcal) value 1 N -0.93 -53.13 11.19 21.65 0.24 -52.89 16 2 C -0.05 -2.59 4.91 84.86 0.42 -2.17 16 3 Si 0.96 43.58 29.59 68.60 2.03 45.61 16 4 H -0.29 -12.70 7.11 99.48 0.71 -11.99 16 5 H -0.30 -13.67 7.11 99.48 0.71 -12.96 16 6 H -0.27 -11.76 7.11 99.48 0.71 -11.06 16 7 C -0.26 -13.73 9.58 84.04 0.81 -12.93 16 8 H 0.07 3.40 7.89 -2.91 -0.02 3.38 16 9 N -0.61 -28.83 3.00 -699.09 -2.09 -30.92 16 10 C 0.14 5.41 6.52 86.36 0.56 5.97 16 11 C -0.13 -3.77 5.61 30.67 0.17 -3.59 16 12 C 0.16 4.47 2.65 45.02 0.12 4.59 16 13 N -1.11 -24.72 5.36 -169.29 -0.91 -25.63 16 14 S 2.62 58.28 5.44 -56.49 -0.31 57.97 16 15 O -0.99 -26.33 18.08 -127.65 -2.31 -28.64 16 16 O -0.99 -29.49 17.39 -127.65 -2.22 -31.71 16 17 C -0.62 -9.72 5.06 71.98 0.36 -9.36 16 18 C -0.11 -1.49 4.62 30.59 0.14 -1.35 16 19 C -0.11 -1.63 3.12 -9.49 -0.03 -1.66 16 20 H 0.09 1.40 8.14 -2.39 -0.02 1.38 16 21 C -0.15 -1.86 6.60 31.59 0.21 -1.65 16 22 C 0.04 0.56 7.70 72.36 0.56 1.11 16 23 O -0.41 -8.46 11.52 -148.98 -1.72 -10.18 16 24 C 0.04 0.64 6.49 72.67 0.47 1.12 16 25 C -0.15 -4.65 5.65 30.67 0.17 -4.48 16 26 C 0.17 7.59 5.31 86.36 0.46 8.05 16 27 H 0.25 13.84 8.31 -92.71 -0.77 13.07 16 28 H 0.02 0.66 8.14 -2.39 -0.02 0.64 16 29 H 0.06 2.24 7.93 -2.39 -0.02 2.22 16 30 H 0.08 2.11 8.14 -2.39 -0.02 2.09 16 31 H 0.07 2.07 8.14 -2.39 -0.02 2.05 16 32 H 0.08 2.42 7.48 -2.39 -0.02 2.41 16 33 H 0.42 8.06 8.80 -96.74 -0.85 7.21 16 34 H 0.15 2.24 6.79 -2.39 -0.02 2.23 16 35 H 0.16 1.82 7.58 -2.39 -0.02 1.80 16 36 H 0.09 1.10 8.05 -2.39 -0.02 1.08 16 37 H 0.09 1.20 8.14 -2.39 -0.02 1.18 16 38 H 0.09 0.86 7.86 -2.39 -0.02 0.85 16 39 H 0.09 0.94 8.14 -2.39 -0.02 0.92 16 40 H 0.07 0.82 8.14 -2.39 -0.02 0.80 16 41 H 0.09 1.13 8.14 -2.39 -0.02 1.11 16 42 H 0.10 1.52 8.11 -2.39 -0.02 1.50 16 43 H 0.07 1.03 7.97 -2.39 -0.02 1.01 16 44 H 0.07 2.08 8.14 -2.39 -0.02 2.06 16 45 H 0.08 2.02 5.75 -2.39 -0.01 2.00 16 46 H 0.06 2.98 6.04 -2.39 -0.01 2.96 16 47 H 0.00 0.08 8.14 -2.39 -0.02 0.06 16 Total: -1.00 -71.99 376.68 -2.75 -74.74 By element: Atomic # 1 Polarization: 17.89 SS G_CDS: 0.11 Total: 18.00 kcal Atomic # 6 Polarization: -20.77 SS G_CDS: 4.42 Total: -16.35 kcal Atomic # 7 Polarization: -106.68 SS G_CDS: -2.76 Total: -109.44 kcal Atomic # 8 Polarization: -64.29 SS G_CDS: -6.24 Total: -70.53 kcal Atomic # 14 Polarization: 43.58 SS G_CDS: 2.03 Total: 45.61 kcal Atomic # 16 Polarization: 58.28 SS G_CDS: -0.31 Total: 57.97 kcal Total: -71.99 -2.75 -74.74 kcal The number of atoms in the molecule is 47 The average number of expansion shells was 16.00 The maximum number of expansion shells was 16 The minimum number of expansion shells was 16 **** NOTA BENE **** This is the net solvation energy for this exact molecular structure (nuclear and electronic)! The standard-state solvation energy should be obtained as the difference between the heat of formation plus delta-G solvation for the relaxed solvated system and that for the relaxed gas-phase system. ZINC001324928245.mol2 47 1SCF run This is a breakdown of the solvation energy calculated without geometric relaxation in solution: (1) E-EN(sol) electronic-nuclear energy of solute -60.500 kcal (2) G-P(sol) polarization free energy of solvation -71.988 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -132.489 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.753 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -74.741 kcal (6) G-S(sol) free energy of system = (1) + (5) -135.242 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.90 seconds